Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: pypi: HTSeq

https://packages.ecosyste.ms/registries/pypi.org/packages/HTSeq

A framework to process and analyze data from high-throughput sequencing (HTS) assays
79 versions
Latest release: over 1 year ago
3 dependent packages
21,995 downloads last month

Papers Mentioning HTSeq 3,071

10.3389/fmicb.2016.01192
MADS-Box Transcription Factor VdMcm1 Regulates Conidiation, Microsclerotia Formation, Pathogenicity, and Secondary Metabolism of Verticillium dahliae
Cited by: 51
Author(s): Dan Xiong, Yonglin Wang, Longyan Tian, Chengming Tian
Software Mentions: 2
Published: over 8 years ago
10.3389/fmicb.2018.01124
The Presence or Absence of Intestinal Microbiota Affects Lipid Deposition and Related Genes Expression in Zebrafish (Danio rerio)
Cited by: 55
Author(s): Sang-Wook Yi, Hui Ren, Samwel Mchele Limbu, Yanfa Sun, Fang Qiao, Wanying Zhai, Zhen‐Yu Du, Meiling Zhang
Software Mentions: 2
Published: over 6 years ago
10.3389/fmicb.2020.01863
Transcriptome Analysis of the Clostridioides difficile Response to Different Doses of Bifidobacterium breve
Cited by: 7
Author(s): Jingpeng Yang, Hong Yang
Software Mentions: 2
Published: over 4 years ago
10.3389/fmicb.2020.584174
Transcriptome Profiles Reveal the Growth-Promoting Mechanisms of Paenibacillus polymyxa YC0136 on Tobacco (Nicotiana tabacum L.)
Cited by: 29
Author(s): Hu Liu, Jun Wang, Huimin Sun, Xiaobin Han, Yuan Peng, Jing Liu, Kai Li, Yuqiang Ding, Chengqiang Wang, Binghai Du
Software Mentions: 2
Published: over 4 years ago
10.3389/fmicb.2019.02497
Blue Light Sensing in Listeria monocytogenes Is Temperature-Dependent and the Transcriptional Response to It Is Predominantly SigB-Dependent
Cited by: 12
Author(s): Amber Dorey, Bo-Hyung Lee, Björn Rotter, Conor O’Byrne
Software Mentions: 2
Published: over 5 years ago
10.3389/fmicb.2021.652468
Pseudomonas Strains Induce Transcriptional and Morphological Changes and Reduce Root Colonization of Verticillium spp.
Cited by: 6
Author(s): Rebekka Harting, Angela Nagel, Kai Nesemann, Annalena Höfer, Emmanouil Bastakis, Harald Kusch, Claire E. Stanley, Martina Stöckli, Alexander Kaever, Katharina J. Hoff, Mario Stanke, Andrew J. deMello, Markus Künzler, Cara H. Haney, Susanna A. Braus‐Stromeyer, Gerhard H. Braus
Software Mentions: 2
Published: over 3 years ago
10.3389/fmicb.2021.587745
Impact of 6-Month Exposure to Aerosols From Potential Modified Risk Tobacco Products Relative to Cigarette Smoke on the Rodent Gastrointestinal Tract
Cited by: 3
Author(s): James N. D. Battey, Justyna Szostak, Blaine Phillips, Charles Teng, Ching Keong Tung, Wei Ting Lim, Ying Shan Yeo, Sonia Ouadi, Karine Baumer, JH Thomas, Jacopo Martinis, Nicolas Sierro, Nikolai V. Ivanov, Patrick Vanscheeuwijck, Manuel C. Peitsch, Julia Hoeng
Software Mentions: 2
Published: over 3 years ago
10.3389/fmicb.2021.649858
Interspecies RNA Interactome of Pathogen and Host in a Heritable Defensive Strategy
Cited by: 1
Author(s): Marcela Legüe, Blanca Aguila, Andrea Calixto
Software Mentions: 2
Published: over 3 years ago
10.3389/fmicb.2016.00751
Genome-Wide Transcriptional Profiling Reveals Two Distinct Outcomes in Central Nervous System Infections of Rabies Virus
Cited by: 17
Author(s): Daiting Zhang, Feilong He, Sheng Bi, Huixia Guo, Bao-Shi Zhang, Fan Wu, Jiaqi Liang, Yuxiang Yang, Tian Qin, Chunmei Ju, Huiying Fan, Jinding Chen, Xingchen Guo, Yongwen Luo
Software Mentions: 2
Published: almost 9 years ago
10.3389/fmicb.2021.633467
Isopropoxy Benzene Guanidine Kills Staphylococcus aureus Without Detectable Resistance
Cited by: 6
Author(s): Xiufeng Zhang, Wenguang Xiong, Xianfeng Peng, Yixing Lu, Jie Hao, Zhanfen Qin, Zhenling Zeng
Software Mentions: 2
Published: about 4 years ago
10.3389/fmicb.2017.00308
Serpentinization-Influenced Groundwater Harbors Extremely Low Diversity Microbial Communities Adapted to High pH
Cited by: 56
Author(s): Katrina I. Twing, William J. Brazelton, M. D. Kubo, Alex Hyer, D. Cardace, Tori M. Hoehler, T. M. McCollom, M. O. Schrenk
Software Mentions: 2
Published: almost 8 years ago
10.3389/fmicb.2021.567942
Quorum Sensing-Mediated and Growth Phase-Dependent Regulation of Metabolic Pathways in Hafnia alvei H4
Cited by: 7
Author(s): Congyang Yan, Li Xue, Gongliang Zhang, Yaolei Zhu, Jingran Bi, Hongshun Hao, Hongman Hou
Software Mentions: 2
Published: almost 4 years ago
10.3389/fmicb.2019.02506
Changes in the Carbon Metabolism of Escherichia coli During the Evolution of Doxycycline Resistance
Cited by: 15
Author(s): Yiwen Yang, Jiandui Mi, Jiadi Liang, Xindi Liao, Baohua Ma, Yongde Zou, Yan Wang, Jiankun Liang, Yinbao Wu
Software Mentions: 2
Published: over 5 years ago
10.3389/fmicb.2020.02038
CRISPR-Associated Factor Csa3b Regulates CRISPR Adaptation and Cmr-Mediated RNA Interference in Sulfolobus islandicus
Cited by: 8
Author(s): Qing Ye, Xue-Qiao Zhao, Jilin Liu, Zhifeng Zeng, Zhufeng Zhang, Tao Liu, Yingjun Li, Wenyuan Han, Nan Peng
Software Mentions: 2
Published: over 4 years ago
10.3389/fmicb.2018.00863
Regulation Mechanism Mediated by Trans-Encoded sRNA Nc117 in Short Chain Alcohols Tolerance in Synechocystis sp. PCC 6803
Cited by: 7
Author(s): Yanqi Bi, Guangsheng Pei, Tao Sun, Zixi Chen, Lei Chen, Weiwen Zhang
Software Mentions: 2
Published: almost 7 years ago
10.3389/fmicb.2018.01568
Exploration of the Regulatory Mechanism of Secondary Metabolism by Comparative Transcriptomics in Aspergillus flavus
Cited by: 16
Author(s): Guangshan Yao, Yuewei Yue, Yishi Fu, Fang Zhou, Zhangling Xu, Genli Ma, Shihua Wang
Software Mentions: 2
Published: over 6 years ago
10.3389/fmicb.2018.02735
Rare Earth Elements Alter Redox Balance in Methylomicrobium alcaliphilum 20ZR
Cited by: 27
Author(s): Ilya R. Akberdin, Dave Collins, Richard Hamilton, Dmitry Oshchepkov, Anil Shukla, Carrie Nicora, Ernesto Nakayasu, Joshua N. Adkins, Marina G. Kalyuzhnaya
Software Mentions: 2
Published: about 6 years ago
10.3389/fmicb.2016.00721
Dual Identification and Analysis of Differentially Expressed Transcripts of Porcine PK-15 Cells and Toxoplasma gondii during in vitro Infection
Cited by: 20
Author(s): Chun-Xue Zhou, Hany M. Elsheikha, Dong‐Hui Zhou, Qing Liu, Xing‐Quan Zhu, Xun Suo
Software Mentions: 2
Published: almost 9 years ago
10.3389/fmicb.2017.00540
Comparative Genomics of Glossina palpalis gambiensis and G. morsitans morsitans to Reveal Gene Orthologs Involved in Infection by Trypanosoma brucei gambiense
Cited by: 5
Author(s): Illiassou Hamidou Soumana, Bernadette Tchicaya, Stéphanie Rialle, Hugues Parrinello, Anne Geiger
Software Mentions: 2
Published: almost 8 years ago
10.3389/fmicb.2020.600463
Cobalt Resistance via Detoxification and Mineralization in the Iron-Reducing Bacterium Geobacter sulfurreducens
Cited by: 23
Author(s): Hunter Dulay, Marcela Tabares, Kazem Kashefi, Gemma Reguera
Software Mentions: 2
Published: about 4 years ago
10.3389/fmicb.2018.01281
The BCGΔBCG1419c Vaccine Candidate Reduces Lung Pathology, IL-6, TNF-α, and IL-10 During Chronic TB Infection
Cited by: 22
Author(s): Mario Alberto Flores-Valdéz, César Pedroza-Roldán, Michel de Jesús Aceves-Sánchez, Eliza J.R. Peterson, Nitin S. Baliga, Rogelio Hernández-Pando, JoLynn Troudt, Elizabeth Creissen, Linda Izzo, Helle Bielefeldt‐Ohmann, Thomas Bickett, Angelo A. Izzo
Software Mentions: 2
Published: over 6 years ago
10.3389/fmicb.2019.01130
Essential Role of σ Factor RpoF in Flagellar Biosynthesis and Flagella-Mediated Motility of Acidithiobacillus caldus
Cited by: 12
Author(s): Chunhua Yang, Xianke Chen, Rui Wang, Jianqiang Lin, Xiangmei Liu, Xin Pang, Cheng‐Jia Zhang, Lin-Xu Chen
Software Mentions: 2
Published: over 5 years ago
10.3389/fmicb.2021.638300
Metaproteogenomic Profiling of Chemosynthetic Microbial Biofilms Reveals Metabolic Flexibility During Colonization of a Shallow-Water Gas Vent
Cited by: 13
Author(s): Sushmita Patwardhan, Francesco Smedile, Donato Giovannelli, Costantino Vetriani
Software Mentions: 2
Published: almost 4 years ago
10.3389/fnmol.2018.00126
RNA-Sequencing Reveals Unique Transcriptional Signatures of Running and Running-Independent Environmental Enrichment in the Adult Mouse Dentate Gyrus
Cited by: 17
Author(s): Catherine-Alexandra Grégoire, Stephanie Tobin, Brianna Goldenstein, Éric Samarut, Andréanne Leclerc, Anne Aumont, Pierre Drapeau, Stephanie Fulton, Karl J.L. Fernandes
Software Mentions: 2
Published: almost 7 years ago
10.3389/fnmol.2017.00259
miRNA Enriched in Human Neuroblast Nuclei Bind the MAZ Transcription Factor and Their Precursors Contain the MAZ Consensus Motif
Cited by: 4
Author(s): Belinda J. Goldie, Chantel Fitzsimmons, Judith Weidenhofer, Joshua Atkins, Dan O. Wang, Murray J. Cairns
Software Mentions: 2
Published: over 7 years ago
10.3389/fnins.2021.636259
Transcriptomic Analysis of Mouse Brain After Traumatic Brain Injury Reveals That the Angiotensin Receptor Blocker Candesartan Acts Through Novel Pathways
Cited by: 12
Author(s): Peter J. Attilio, Dustin M. Snapper, Milan Rusnak, Akira Isaac, Anthony R. Soltis, Matthew D. Wilkerson, Clifton L. Dalgard, Aviva J. Symes
Software Mentions: 2
Published: almost 4 years ago
10.3389/fnins.2021.703730
The Type 3 Deiodinase Is a Critical Modulator of Thyroid Hormone Sensitivity in the Fetal Brain
Cited by: 8
Author(s): Marı́a Elena Martı́nez, Arturo Hernández
Software Mentions: 2
Published: over 3 years ago
10.3389/fnins.2015.00351
Dynamic expression of long noncoding RNAs and repeat elements in synaptic plasticity
Cited by: 41
Author(s): Jesper L.V. Mååg, Debabrata Panja, Ida Sporild, Sudarshan Patil, Dominik C. Kaczorowski, Clive R. Bramham, Marcel E. Dinger, Karin Wibrand
Software Mentions: 2
Published: over 9 years ago
10.3389/fonc.2021.643669
Carcinoembryonic Antigen Related Cell Adhesion Molecule 6 Promotes Carcinogenesis of Gastric Cancer and Anti-CEACAM6 Fluorescent Probe Can Diagnose the Precancerous Lesions
Cited by: 4
Author(s): Fangmei An, Chu-Wei Zheng, Guoqiang Zhang, Liang-Yun Zhou, Yuqing Wu, Hangping Zheng, Zhiyi Zhou, Ke Chen, Qiang Zhan
Software Mentions: 2
Published: over 3 years ago
10.3389/fonc.2021.608816
Inhibition of the mRNA-Binding Protein IGF2BP1 Suppresses Proliferation and Sensitizes Neuroblastoma Cells to Chemotherapeutic Agents
Cited by: 8
Author(s): Jason M. Biegel, Mayura Dhamdhere, Shuang Gao, Chethana P. Gowda, Yuka Imamura Kawasawa, Vladimir S. Spiegelman
Software Mentions: 2
Published: almost 4 years ago
10.3389/fonc.2020.615472
Multi-Omics Analysis of Brain Metastasis Outcomes Following Craniotomy
Cited by: 28
Author(s): Jing Su, Qianqian Song, Shadi Qasem, Stacey S. O’Neill, Jingyun Lee, Cristina M. Furdui, Boris Pasche, Linda J. Metheny-Barlow, Adrianna Henson Masters, Hui-Wen Lo, Fei Xing, Kounosuke Watabe, Lance D. Miller, Stephen B. Tatter, Adrian W. Laxton, Christopher T. Whitlow, Michael D. Chan, M. Soike, Jimmy Ruiz
Software Mentions: 2
Published: almost 4 years ago
10.3389/fonc.2020.00249
B Cells as Prognostic Biomarker After Surgery for Colorectal Liver Metastases
Cited by: 5
Author(s): Joost Hof, Lydia Visser, Diederik J. Höppener, Pieter M. H. Nierop, Miente Martijn Terpstra, Annette Gouw, Dirk J. Grünhagen, Cornelis Verhoef, Rolf H. Sijmons, Koert P. de Jong, Klaas Kok
Software Mentions: 2
Published: almost 5 years ago
10.3389/fonc.2020.00304
Integrative Analysis of Breast Cancer Cells Reveals an Epithelial-Mesenchymal Transition Role in Adaptation to Acidic Microenvironment
Cited by: 27
Author(s): Mehdi Sadeghi, Bryce Ordway, Ilyia Rafiei, Punit Borad, Bin Fang, John Koomen, Chaomei Zhang, Sean Yoder, Joseph Johnson, Mehdi Damaghi
Software Mentions: 2
Published: almost 5 years ago
10.3389/fphar.2021.665635
Study on the Effect of Macrophages on Vascular Endothelium in Mice With Different TCM Syndromes of Dyslipidemia and its Biological Basis Based on RNA-Seq Technology
Cited by: 2
Author(s): Jing Chen, Chao Ye, Zheng Yang, Tieshan Wang, Xu Bing, Pengyang Li, Shan Zhang, Xiaolin Xue
Software Mentions: 2
Published: over 3 years ago
10.3389/fphar.2021.727901
The Functional Roles of RNAs Cargoes Released by Neutrophil-Derived Exosomes in Dermatomyositis
Cited by: 5
Author(s): Liya Li, Xiaoxia Zuo, Di Liu, Hui Luo, Honglin Zhu
Software Mentions: 2
Published: over 3 years ago
10.3389/fphar.2021.666432
Network Pharmacology-Based Validation of the Efficacy of Huiyangjiuji Decoction in the Treatment of Experimental Colitis
Cited by: 7
Author(s): Wei Yu, Hongju Cheng, Baorang Zhu, Jing Yan
Software Mentions: 2
Published: over 3 years ago
10.3389/fphys.2018.01245
Impact of Lactobacillus casei BL23 on the Host Transcriptome, Growth and Disease Resistance in Larval Zebrafish
Cited by: 30
Author(s): Chubin Qin, Yadong Xie, Yibing Wang, Shuning Li, Chao Ran, Shunping He
Software Mentions: 2
Published: over 6 years ago
10.3389/fphys.2021.628777
Inhibiting Mitochondrial Cytochrome c Oxidase Downregulates Gene Transcription After Traumatic Brain Injury in Drosophila
Cited by: 8
Author(s): Ekta Shah, Maik Hüttemann, Thomas H. Sanderson, Katherine Gurdziel, Douglas M. Ruden
Software Mentions: 2
Published: almost 4 years ago
10.3389/fphys.2019.00092
hCLE/RTRAF-HSPC117-DDX1-FAM98B: A New Cap-Binding Complex That Activates mRNA Translation
Cited by: 13
Author(s): Alejandra Pazo, Alicia Pérez-González, Juan Carlos Oliveros, Maite Huarte, Juan Pablo Chavez, Amelia Nieto
Software Mentions: 2
Published: almost 6 years ago
10.3389/fphys.2021.702973
A Detailed Spatial Expression Analysis of Wing Phenotypes Reveals Novel Patterns of Odorant Binding Proteins in the Soybean Aphid, Aphis glycines
Cited by: 3
Author(s): Ling Wang, Hong Yin, Zhiguo Zhu, Shuai Yang, Jia Fan
Software Mentions: 2
Published: over 3 years ago
10.3389/fphys.2018.01889
Cortisol Acting Through the Glucocorticoid Receptor Is Not Involved in Exercise-Enhanced Growth, But Does Affect the White Skeletal Muscle Transcriptome in Zebrafish (Danio rerio)
Cited by: 11
Author(s): Arjan P. Palstra, Silvia Méndez, Ron P. Dirks, Marcel J. M. Schaaf
Software Mentions: 2
Published: about 6 years ago
10.3389/fphys.2016.00175
Anguillicola crassus Infection Significantly Affects the Silvering Related Modifications in Steady State mRNA Levels in Gas Gland Tissue of the European Eel
Cited by: 13
Author(s): Bernd Pelster, Gabriel Schneebauer, Ron P. Dirks
Software Mentions: 2
Published: over 8 years ago
10.3389/fpls.2018.00946
Melatonin Induces Parthenocarpy by Regulating Genes in Gibberellin Pathways of ‘Starkrimson’ Pear (Pyrus communis L.)
Cited by: 42
Author(s): Jianlong Liu, Rui Zhai, Fengxia Liu, Yingxiao Zhao, Huibin Wang, Lulu Liu, Chengquan Yang, Zhigang Wang, Fengwang Ma, Lingfei Xu
Software Mentions: 2
Published: over 6 years ago
10.3389/fpls.2020.01200
Dissection of Root Transcriptional Responses to Low pH, Aluminum Toxicity and Iron Excess Under Pi-Limiting Conditions in Arabidopsis Wild-Type and stop1 Seedlings
Cited by: 10
Author(s): Jonathan Odilón Ojeda-Rivera, Araceli Oropeza-Aburto, Luis Herrera‐Estrella
Software Mentions: 2
Published: over 4 years ago
10.3389/fpls.2014.00325
Genome-based analysis of the transcriptome from mature chickpea root nodules
Cited by: 17
Author(s): Fabian Afonso-Grunz, Carlos Molina, Klaus Hoffmeier, Lukas Rycak, Himabindu Kudapa, Rajeev K. Varshney, Jean‐Jacques Drevon, Peter Winter, G. Kahl
Software Mentions: 2
Published: over 10 years ago
10.3389/fpls.2015.01136
RNA-Seq Analysis of Rice Roots Reveals the Involvement of Post-Transcriptional Regulation in Response to Cadmium Stress
Cited by: 64
Author(s): Fei He, Qingquan Liu, Zheng Li, Yaqiong Cui, Zhenguo Shen, Luqing Zheng
Software Mentions: 2
Published: about 9 years ago
10.3389/fpls.2016.01818
Transcriptional Profiling of Rice Treated with MoHrip1 Reveal the Function of Protein Elicitor in Enhancement of Disease Resistance and Plant Growth
Cited by: 13
Author(s): Shun Lv, Zhenzhen Wang, Xiufen Yang, Lan-Ping Guo, Dewen Qiu, Hongmei Zeng
Software Mentions: 2
Published: about 8 years ago
10.3389/fpls.2016.01894
Functional and RNA-Sequencing Analysis Revealed Expression of a Novel Stay-Green Gene from Zoysia japonica (ZjSGR) Caused Chlorophyll Degradation and Accelerated Senescence in Arabidopsis
Cited by: 12
Author(s): Ke Teng, Zhihui Chang, Xiao Li, Xinbo Sun, Xiaofang Liang, Lu Xu, Yuehui Chao, Liebao Han
Software Mentions: 2
Published: about 8 years ago
10.3389/fpls.2017.00290
Transcriptomic Profiling of the Maize (Zea mays L.) Leaf Response to Abiotic Stresses at the Seedling Stage
Cited by: 51
Author(s): Pengcheng Li, Wei Cao, Huiying Fang, Shaohang Xu, Yin Su, Yingying Zhang, Dezhou Lin, Jianan Wang, Yufei Chen, Chenwu Xu, Zefeng Yang
Software Mentions: 2
Published: almost 8 years ago
10.3389/fpls.2017.01732
ALA6, a P4-type ATPase, Is Involved in Heat Stress Responses in Arabidopsis thaliana
Cited by: 22
Author(s): Yue Niu, Dong Qian, Baiyun Liu, Jianchao Ma, Dongshi Wan, Xinyu Wang, Wenliang He, Yun Xiang
Software Mentions: 2
Published: over 7 years ago
10.3389/fpls.2018.01206
The Digestive System of the Two-Spotted Spider Mite, Tetranychus urticae Koch, in the Context of the Mite-Plant Interaction
Cited by: 37
Author(s): Nicolas Bensoussan, Vladimir Zhurov, Sota Yamakawa, Caroline O’Neil, Takeshi Suzuki, Miodrag Grbić, Vojislava Grbić
Software Mentions: 2
Published: over 6 years ago
10.3389/fpls.2021.681283
Overexpression of the Peach Transcription Factor Early Bud-Break 1 Leads to More Branches in Poplar
Cited by: 5
Author(s): Xuehui Zhao, Binbin Wen, Chen Li, Qiuping Tan, Li Liu, Xiude Chen, Ling Li, Xiling Fu
Software Mentions: 2
Published: over 3 years ago
10.3389/fpls.2015.00550
Acetylation of cell wall is required for structural integrity of the leaf surface and exerts a global impact on plant stress responses
Cited by: 21
Author(s): Majse Nafisi, Maria Stranne, Lorenzo Fimognari, Susanna Atwell, Helle Juel Martens, Pai Pedas, Sara Fasmer Hansen, Christiane Nawrath, Henrik Vibe Scheller, Daniel J. Kliebenstein, Yumiko Sakuragi
Software Mentions: 2
Published: over 9 years ago
10.3389/fpls.2017.00592
Transcriptomics Analyses Reveal Wheat Responses to Drought Stress during Reproductive Stages under Field Conditions
Cited by: 82
Author(s): Jun Ma, Ruiqi Li, Hongguang Wang, Dongxiao Li, Xingyi Wang, Yuechen Zhang, Wenchao Zhen, Huijun Duan, Guijun Yan, Yanming Liu
Software Mentions: 2
Published: almost 8 years ago
10.3389/fpls.2016.00995
Transcription of TIR1-Controlled Genes Can be Regulated within 10 Min by an Auxin-Induced Process. Can TIR1 be the Receptor?
Cited by: 1
Author(s): Corinna Labusch, Yunus Effendi, Martin Fulda, Günther F. E. Scherer
Software Mentions: 2
Published: over 8 years ago
10.3389/fpls.2018.00110
Analysis of Extreme Phenotype Bulk Copy Number Variation (XP-CNV) Identified the Association of rp1 with Resistance to Goss's Wilt of Maize
Cited by: 21
Author(s): Ying Hu, Jie Ren, Zhao Peng, Arnoldo A. Umana, Ha Le, Tatiana Danilova, Junjie Fu, Haiyan Wang, Alison E. Robertson, Scot H. Hulbert, Frank F. White, Sanzhen Liu
Software Mentions: 2
Published: about 7 years ago
10.3389/fpls.2021.642701
Regulation of 2,4-D Isooctyl Ester on Triticum aestivum and Aegilops tauschii Tillering and Endogenous Phytohormonal Responses
Cited by: 6
Author(s): Haiyan Yu, Hailan Cui, Jingchao Chen, Pingping Chen, Meijing Ji, Songtao Huang, Xiangju Li
Software Mentions: 2
Published: almost 4 years ago
10.3389/fpls.2015.00536
TAL effectors and activation of predicted host targets distinguish Asian from African strains of the rice pathogen Xanthomonas oryzae pv. oryzicola while strict conservation suggests universal importance of five TAL effectors
Cited by: 79
Author(s): Katherine Wilkins, Nicholas J. Booher, Li Wang, Adam J. Bogdanove
Software Mentions: 2
Published: over 9 years ago
10.3389/fpls.2021.640606
Transcriptomic Profiling of Apple Calli With a Focus on the Key Genes for ALA-Induced Anthocyanin Accumulation
Cited by: 12
Author(s): Jie Zheng, Longbo Liu, Huihui Tao, Yuyan An, Liangju Wang
Software Mentions: 2
Published: almost 4 years ago
10.3389/fpls.2019.01002
De novo Assembly of the Pokeweed Genome Provides Insight Into Pokeweed Antiviral Protein (PAP) Gene Expression
Cited by: 10
Author(s): Kira C. M. Neller, Camille A Diaz, Adrian E. Platts, Katalin A. Hudak
Software Mentions: 2
Published: over 5 years ago
10.3389/fpls.2021.719549
High-Throughput Sequencing Reveals the Regulatory Networks of Transcriptome and Small RNAs During the Defense Against Marssonina brunnea in Poplar
Cited by: 4
Author(s): Yangwenke Liao, Qingyue Zhang, Rongrong Cui, Xin Xu, Feng Zhu, Qiang Cheng, Yong Li
Software Mentions: 2
Published: over 3 years ago
10.3389/fpls.2021.635714
Complex-Type N-Glycans Influence the Root Hair Landscape of Arabidopsis Seedlings by Altering the Auxin Output
Cited by: 7
Author(s): Manuel Frank, Heidi Kaulfürst-Soboll, Kerstin Fischer, Antje von Schaewen
Software Mentions: 2
Published: almost 4 years ago
10.3389/fpls.2021.733846
Gene Body Methylation Confers Transcription Robustness in Mangroves During Long-Term Stress Adaptation
Cited by: 3
Author(s): Yushuai Wang, Aimei Dai, Yiping Chen, Tian Tang
Software Mentions: 2
Published: over 3 years ago
10.3389/fpls.2017.00958
Discovery of Putative Herbicide Resistance Genes and Its Regulatory Network in Chickpea Using Transcriptome Sequencing
Cited by: 19
Author(s): Mir Asif Iquebal, Khela Ram Soren, Priyanka Gangwar, P. S. Shanmugavadivel, K. Aravind, Deepak Singla, Sarika Jaiswal, Rahul Singh Jasrotia, Sushil K. Chaturvedi, Narendra Pratap Singh, Rajeev K. Varshney, Anil Rai, Dinesh Kumar
Software Mentions: 2
Published: over 7 years ago
10.3389/fpls.2017.00784
The TOR Pathway Is Involved in Adventitious Root Formation in Arabidopsis and Potato
Cited by: 37
Author(s): Kexuan Deng, Pan Dong, Wanjing Wang, Li Feng, Fei Xiong, Kai Wang, Shumin Zhang, Shun Feng, Bangjun Wang, Jiankui Zhang, Maozhi Ren
Software Mentions: 2
Published: almost 8 years ago
10.3389/fpls.2017.01552
Differential Sensitivity of Fruit Pigmentation to Ultraviolet Light between Two Peach Cultivars
Cited by: 47
Author(s): Yun Zhao, Weiqi Dong, Ke Wang, Bo Zhang, Andrew C. Allan, Kui Lin‐Wang, Kunsong Chen, Changjie Xu
Software Mentions: 2
Published: over 7 years ago
10.3389/fpls.2019.00243
Global Methylomic and Transcriptomic Analyses Reveal the Broad Participation of DNA Methylation in Daily Gene Expression Regulation of Populus trichocarpa
Cited by: 19
Author(s): Lisong Liang, Ying-Ying Chang, Junqian Lu, Xiaojuan Wu, Qi Liu, Weixi Zhang, Xiaohua Su, Bingyu Zhang
Software Mentions: 2
Published: almost 6 years ago
10.3389/fpls.2019.01101
Ethylene Signaling Is Required for Fully Functional Tension Wood in Hybrid Aspen
Cited by: 13
Author(s): Carolin Seyfferth, Bernard A. Wessels, András Gorzsás, Jonathan Love, Markus Rüggeberg, Nicolas Delhomme, Thomas Vain, Kamil Antos, Hannele Tuominen, Björn Sundberg, Judith Felten
Software Mentions: 2
Published: over 5 years ago
10.3389/fpls.2018.01661
Rice Calcineurin B-Like Protein-Interacting Protein Kinase 31 (OsCIPK31) Is Involved in the Development of Panicle Apical Spikelets
Cited by: 21
Author(s): Yongbin Peng, Feixue Hou, Que Bai, Peizhou Xu, Yongxiang Liao, Hongyu Zhang, Chaojian Gu, Xiaoshu Deng, Tingkai Wu, Xiaoqiong Chen, Asif Ali
Software Mentions: 2
Published: about 6 years ago
10.3389/fpls.2016.01080
Identification of Drought Tolerant Mechanisms in Maize Seedlings Based on Transcriptome Analysis of Recombination Inbred Lines
Cited by: 81
Author(s): Min Huang, Chengxuan Chen, Shaowei Wei, Xiaoling Shang, Meiyun Sun, Xia R, Xiangguo Liu, Dongyun Hao, Huabang Chen, Qi Xie
Software Mentions: 2
Published: over 8 years ago
10.3389/fpls.2020.00512
Functional Relevance of Citrulline in the Vegetative Tissues of Watermelon During Abiotic Stresses
Cited by: 28
Author(s): Qiushuo Song, M. S. Joshi, James DiPiazza, Vijay Joshi
Software Mentions: 2
Published: almost 5 years ago
10.3389/fpls.2017.01993
Melatonin Attenuates Potato Late Blight by Disrupting Cell Growth, Stress Tolerance, Fungicide Susceptibility and Homeostasis of Gene Expression in Phytophthora infestans
Cited by: 93
Author(s): Shumin Zhang, Xianzhe Zheng, Rüssel J. Reiter, Shun Feng, Ying Wang, Sen Liu, Jin Liang, Zhengguo Li, Raju Datla, Maozhi Ren
Software Mentions: 2
Published: about 7 years ago
10.3389/fpls.2021.580846
QTL-Seq and Transcriptome Analysis Disclose Major QTL and Candidate Genes Controlling Leaf Size in Sesame (Sesamum indicum L.)
Cited by: 12
Author(s): Sheng Chen, Shengnan Song, Rong Zhou, Donghua Li, Yuan Gao, Xianghua Cui, Xin Tang, Yanxin Zhang, Jinxing Tu, Xiurong Zhang, Linhai Wang
Software Mentions: 2
Published: almost 4 years ago
10.3389/fspor.2019.00041
Deficiency of Vgll2 Gene Alters the Gene Expression Profiling of Skeletal Muscle Subjected to Mechanical Overload
Cited by: 1
Author(s): Keisuke Hitachi, Hidehito Inagaki, Hiroki Kurahashi, Hitoshi Okada, Kunihiro Tsuchida, Masahiko Honda
Software Mentions: 2
Published: over 5 years ago
10.3389/fvets.2020.603584
Transcriptome Profiles of Highly Pathogenic Pure Avian H7N9 Virus-Infected Lungs of BALB/c Mice
Cited by: 1
Author(s): Wenxiao Gong, Kun Huang, Yufei Zhang, Xinglin He, Chengfei Li, Haiying Mao, Yanming Wei, Zhong Zou, Meilin Jin
Software Mentions: 2
Published: about 4 years ago
10.3389/fvets.2021.666838
Genomic and Transcriptomic Characterization of Canine Osteosarcoma Cell Lines: A Valuable Resource in Translational Medicine
Cited by: 6
Author(s): Cecilia Gola, Diana Giannuzzi, Andrea Rinaldi, Selina Iussich, Paola Modesto, Emanuela Morello, Paolo Buracco, Luca Aresu, Raffaella De Maria
Software Mentions: 2
Published: almost 4 years ago
10.1007/s10142-017-0585-5
A large-scale multiomics analysis of wheat stem solidness and the wheat stem sawfly feeding response, and syntenic associations in barley, Brachypodium, and rice
Cited by: 17
Author(s): Sezgi Biyiklioglu, Burcu Alptekin, Bala Anı Akpınar, Andrea C. Varella, Megan L. Hofland, David K. Weaver, Brian Bothner, Hikmet Budak
Software Mentions: 2
Published: almost 7 years ago
10.1534/g3.116.030528
A Population of Deletion Mutants and an Integrated Mapping and Exome-seq Pipeline for Gene Discovery in Maize
Cited by: 12
Author(s): Shangang Jia, Aixia Li, Kyla J. Morton, Penny Avoles-Kianian, Shahryar F. Kianian, Chi Zhang, David R. Holding
Software Mentions: 2
Published: over 8 years ago
10.1534/g3.116.034991
Time-Course Analysis of Gene Expression During the<i>Saccharomyces cerevisiae</i>Hypoxic Response
Cited by: 36
Author(s): Nasrine Bendjilali, Samuel MacLeon, Gurmannat Kalra, Stephen D. Willis, A K M Nawshad Hossian, Erica Avery, Olivia Wojtowicz, Mark J. Hickman
Software Mentions: 2
Published: about 8 years ago
10.1534/g3.116.036137
Small RNA Sequencing in Cells and Exosomes Identifies eQTLs and 14q32 as a Region of Active Export
Cited by: 13
Author(s): Emily K. Tsang, Nathan S. Abell, Xin Li, Vanessa Anaya, Jakub Karczewski, David A. Knowles, Raymond G. Sierra, Kevin S. Smith, Stephen B. Montgomery
Software Mentions: 2
Published: about 8 years ago
10.1534/g3.117.041004
RNAseq Analysis of the<i>Drosophila</i>Response to the Entomopathogenic Nematode<i>Steinernema</i>
Cited by: 32
Author(s): Sangita Yadav, S. J. Daugherty, Amol C. Shetty, Ioannis Eleftherianos
Software Mentions: 2
Published: over 7 years ago
10.1534/g3.117.043414
RNA Binding Protein Vigilin Collaborates with miRNAs To Regulate Gene Expression for Caenorhabditis elegans Larval Development
Cited by: 6
Author(s): Rebecca Zabinsky, Brett Weum, Mingxue Cui, Min Han
Software Mentions: 2
Published: over 7 years ago
10.1534/g3.117.300493
Uncovering Genomic Regions Associated with<i>Trypanosoma</i>Infections in Wild Populations of the Tsetse Fly<i>Glossina fuscipes</i>
Cited by: 7
Author(s): Andrea Gloria‐Soria, William A. Dunn, Xiaoqing Yu, Aurélien Vigneron, Kuang‐Yao Lee, Mo Li, Brian L. Weiss, Hongyu Zhao, Serap Aksoy, Adalgisa Caccone
Software Mentions: 2
Published: almost 7 years ago
10.1534/g3.117.300253
Cell-Type Transcriptomes of the Multicellular Green Alga<i>Volvox carteri</i>Yield Insights into the Evolutionary Origins of Germ and Somatic Differentiation Programs
Cited by: 24
Author(s): Gavriel Matt, James G. Umen
Software Mentions: 2
Published: about 7 years ago
10.1534/g3.118.200208
Differential Expression Profiling of Microspores During the Early Stages of Isolated Microspore Culture Using the Responsive Barley Cultivar Gobernadora
Cited by: 19
Author(s): Sébastien Bélanger, Suzanne Marchand, Pierre-Étienne Jacques, Blake C. Meyers, François Belzile
Software Mentions: 2
Published: almost 7 years ago
10.1534/g3.118.200154
A Whole Genome Assembly of the Horn Fly, <i>Haematobia irritans</i>, and Prediction of Genes with Roles in Metabolism and Sex Determination
Cited by: 12
Author(s): Kranti Konganti, Felix D. Guerrero, Faye Schilkey, Peter Ngam, Jennifer L. Jacobi, Pooja Umale, Adalberto A Pérez de León, David W. Threadgill
Software Mentions: 2
Published: almost 7 years ago
10.1534/g3.118.200284
Subtle Perturbations of the Maize Methylome Reveal Genes and Transposons Silenced by Chromomethylase or RNA-Directed DNA Methylation Pathways
Cited by: 16
Author(s): Sarah N. Anderson, Gregory J Zynda, Jawon Song, Zhaoxue Han, Matthew Vaughn, Qing Li, Nathan M. Springer
Software Mentions: 2
Published: over 6 years ago
10.1534/g3.118.200296
A Catalogue of Putative <i>cis</i>-Regulatory Interactions Between Long Non-coding RNAs and Proximal Coding Genes Based on Correlative Analysis Across Diverse Human Tumors
Cited by: 2
Author(s): Swaraj Basu, Erik Larsson
Software Mentions: 2
Published: over 6 years ago
10.1534/g3.119.400148
Genome and Ontogenetic-Based Transcriptomic Analyses of the Flesh Fly,<i>Sarcophaga bullata</i>
Cited by: 9
Author(s): Ellen O. Martinson, Justin T. Peyton, Yogeshwar D. Kelkar, Emily C. Jennings, Joshua B. Benoit, John H. Werren, David L. Denlinger
Software Mentions: 2
Published: almost 6 years ago
10.1093/gigascience/giz027
Chromosome-scale genome assembly of kiwifruit <i>Actinidia eriantha</i> with single-molecule sequencing and chromatin interaction mapping
Cited by: 55
Author(s): Wei Tang, Xuepeng Sun, Junyang Yue, Xiaofeng Tang, Chen Jiao, Ying Yang, Xiangli Niu, Min Miao, Danfeng Zhang, Shengxiong Huang, Wei Shi, Mingzhang Li, Congbing Fang, Zhangjun Fei, Yongsheng Liu
Software Mentions: 2
Published: almost 6 years ago
10.1002/glia.23717
Gene expression profiling reveals a conserved microglia signature in larval zebrafish
Cited by: 37
Author(s): Julie Mazzolini, Sigrid Le Clerc, Gregoire Morisse, Cédric Coulonges, Laura E. Kuil, Tjakko J. van Ham, Jean‐François Zagury, Dirk Sieger
Software Mentions: 2
Published: over 5 years ago
10.1002/glia.23870
Insights into olfactory ensheathing cell development from a laser‐microdissection and transcriptome‐profiling approach
Cited by: 10
Author(s): Surangi Perera, Ruth M. Williams, Rachel Lyne, O. Oztug D. Stubbs, Dennis P. Buehler, Tatjana Sauka‐Spengler, Masaharu Noda, Gos Micklem, E. Michelle Southard‐Smith, Clare V. H. Baker
Software Mentions: 2
Published: over 4 years ago
10.1186/s41065-016-0021-1
Transcriptome analysis of genes involved in anthocyanins biosynthesis and transport in berries of black and white spine grapes (Vitis davidii)
Cited by: 35
Author(s): Lina Sun, Xiucai Fan, Ying Zhang, Jianfu Jiang, Han Sun, Chonghuai Liu
Software Mentions: 2
Published: about 8 years ago
10.1038/s41438-019-0168-9
Differential gene expression in non-transgenic and transgenic “M.26” apple overexpressing a peach CBF gene during the transition from eco-dormancy to bud break
Cited by: 15
Author(s): Timothy S. Artlip, Adam McDermaid, Qin Ma, Michael Wisniewski
Software Mentions: 2
Published: over 5 years ago
10.1038/s41438-020-0247-y
Identification and distribution of a single nucleotide polymorphism responsible for the catechin content in tea plants
Cited by: 22
Author(s): Chenkai Jiang, Jianqiang Ma, Yu-Fei Liu, Jie-Dan Chen, Dejiang Ni, Liang Chen
Software Mentions: 2
Published: almost 5 years ago
10.1038/s41438-018-0079-1
Transcriptome reprogramming, epigenetic modifications and alternative splicing orchestrate the tomato root response to the beneficial fungus Trichoderma harzianum
Cited by: 80
Author(s): Monica De Palma, Maria Salzano, Clizia Villano, Riccardo Aversano, Matteo Lorito, Michelina Ruocco, Teresa Docimo, Anna Lisa Piccinelli, Nunzio D’Agostino, Marina Tucci
Software Mentions: 2
Published: about 6 years ago
10.1038/s41438-020-0285-5
CPPU may induce gibberellin-independent parthenocarpy associated with PbRR9 in ‘Dangshansu’ pear
Cited by: 16
Author(s): Liu Cong, Ting Wu, Hanting Liu, Huibin Wang, Haiqi Zhang, Guangping Zhao, Yao Wen, Qianrong Shi, Lingfei Xu, Zhigang Wang
Software Mentions: 2
Published: almost 5 years ago
10.1038/s41438-020-00426-6
Melon short internode (CmSi) encodes an ERECTA-like receptor kinase regulating stem elongation through auxin signaling
Cited by: 12
Author(s): Sen Yang, Kaige Zhang, Huayu Zhu, Xiaojing Zhang, Wenkai Yan, Ning Xu, Dongming Liu, Jianbin Hu, Yufeng Wu, Yiqun Weng, Luming Yang
Software Mentions: 2
Published: about 4 years ago
10.1038/s41438-021-00491-5
PbEIL1 acts upstream of<i>PbCysp1</i>to regulate ovule senescence in seedless pear
Cited by: 10
Author(s): Huibin Wang, Haiqi Zhang, Fangfang Liang, Liu Cong, Linyan Song, Xieyu Li, Rui Zhai, Chengquan Yang, Zhigang Wang, Fengwang Ma, Lingfei Xu
Software Mentions: 2
Published: almost 4 years ago
10.1038/s41438-018-0035-0
Investigation of benzylisoquinoline alkaloid biosynthetic pathway and its transcriptional regulation in lotus
Cited by: 39
Author(s): Ximing Deng, Li Zhao, Ting Fang, Yan Xiong, Collins Ogutu, Dong Yang, Sornkanok Vimolmangkang, Yanling Liu, Yuepeng Han
Software Mentions: 2
Published: over 6 years ago